RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3537
(117 letters)
>1gpe_A Protein (glucose oxidase); oxidoreductase(flavoprotein); HET: NAG
BMA MAN FAD; 1.80A {Penicillium amagasakiense} SCOP:
c.3.1.2 d.16.1.1
Length = 587
Score = 126 bits (318), Expect = 2e-35
Identities = 20/91 (21%), Positives = 39/91 (42%)
Query: 26 CDGFHYDSDDYWKCTIKRRSSSYYHLSSTARMGDNILTSVVNYKLQVHGLENVRIADASV 85
+ + W + + +H S+ M L VV+ +V+G + +R+ D S+
Sbjct: 496 YNLVQNATLSQWSDYVLQNFRPNWHAVSSCSMMSRELGGVVDATAKVYGTQGLRVIDGSI 555
Query: 86 MPYTVNANIHATCVMIGEKCADLIKQYWEKS 116
P V++++ + K AD I + KS
Sbjct: 556 PPTQVSSHVMTIFYGMALKVADAILDDYAKS 586
>3q9t_A Choline dehydrogenase and related flavoproteins;
glucose-methanol-choline oxidoreductase family, formate
OXID formyl-FAD, oxidoreductase; HET: FAY; 2.24A
{Aspergillus oryzae}
Length = 577
Score = 124 bits (313), Expect = 1e-34
Identities = 33/86 (38%), Positives = 49/86 (56%)
Query: 28 GFHYDSDDYWKCTIKRRSSSYYHLSSTARMGDNILTSVVNYKLQVHGLENVRIADASVMP 87
DSD + R + +H + TAR+ NI VV+ KL+VHG++ +R+ADASV+P
Sbjct: 488 EMPLDSDKEMHRAVLDRCQTAFHPTGTARLSKNIDQGVVDPKLKVHGIKKLRVADASVIP 547
Query: 88 YTVNANIHATCVMIGEKCADLIKQYW 113
+ I + +GEKCAD+IK
Sbjct: 548 IIPDCRIQNSVYAVGEKCADMIKAEH 573
>3qvp_A Glucose oxidase; oxidoreductase; HET: NAG BMA MAN FAD; 1.20A
{Aspergillus niger} PDB: 1gal_A* 1cf3_A* 3qvr_A*
Length = 583
Score = 120 bits (302), Expect = 4e-33
Identities = 17/82 (20%), Positives = 35/82 (42%)
Query: 32 DSDDYWKCTIKRRSSSYYHLSSTARMGDNILTSVVNYKLQVHGLENVRIADASVMPYTVN 91
W I YH T M + VV+ +V+G++ +R+ D S+ P ++
Sbjct: 498 ADLSAWTEYIPYHFRPNYHGVGTCSMMPKEMGGVVDNAARVYGVQGLRVIDGSIPPTQMS 557
Query: 92 ANIHATCVMIGEKCADLIKQYW 113
+++ + K +D I + +
Sbjct: 558 SHVMTVFYAMALKISDAILEDY 579
>3fim_B ARYL-alcohol oxidase; AAO, lignin degradation, oxidoreductase,
flavoprotein; HET: FAD; 2.55A {Pleurotus eryngii}
Length = 566
Score = 114 bits (289), Expect = 2e-31
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 1/81 (1%)
Query: 32 DSDDYWKCTIKRRSSSYYHLSSTARMG-DNILTSVVNYKLQVHGLENVRIADASVMPYTV 90
D + I+ +++ +H TA M VV+ L+V G++ +RI D S++P+
Sbjct: 484 TDDAAIESYIRDNANTIFHPVGTASMSPRGASWGVVDPDLKVKGVDGLRIVDGSILPFAP 543
Query: 91 NANIHATCVMIGEKCADLIKQ 111
NA+ ++G++ ADLIK
Sbjct: 544 NAHTQGPIYLVGKQGADLIKA 564
>1ju2_A HydroxynitrIle lyase; flavin, GMC oxidoreductase, almond,
cyanogenesis; HET: NAG NDG FUC BMA MAN FAD; 1.47A
{Prunus dulcis} SCOP: c.3.1.2 d.16.1.1 PDB: 3gdp_A*
3gdn_A*
Length = 536
Score = 111 bits (281), Expect = 2e-30
Identities = 18/82 (21%), Positives = 34/82 (41%), Gaps = 5/82 (6%)
Query: 30 HYDSDDYWKCTIKRRSSSYYHLSSTARMGDNILTSVVNYKLQVHGLENVRIADASVMPYT 89
D ++ + +SY+H +G V++ +V G+ +R+ D S PYT
Sbjct: 439 DQTDDAAFETFCRESVASYWHYHGGCLVG-----KVLDGDFRVTGINALRVVDGSTFPYT 493
Query: 90 VNANIHATCVMIGEKCADLIKQ 111
++ +M+G I Q
Sbjct: 494 PASHPQGFYLMLGRYVGIKILQ 515
>2jbv_A Choline oxidase; alcohol oxidation, flavoenyzme oxidase, covalently
linked FAD, C4A-adduct, flavoprotein, oxidoreductase;
HET: FAO; 1.86A {Arthrobacter globiformis} PDB: 3nne_A*
3ljp_A*
Length = 546
Score = 110 bits (277), Expect = 8e-30
Identities = 33/85 (38%), Positives = 51/85 (60%), Gaps = 1/85 (1%)
Query: 28 GFHYDSDDYWKCTIKRRSSSYYHLSSTARMG-DNILTSVVNYKLQVHGLENVRIADASVM 86
G +D+ + I++ ++ YH T RMG S ++ +L+V G+ +R+ADASVM
Sbjct: 444 GVEAQTDEELQDYIRKTHNTVYHPVGTVRMGAVEDEMSPLDPELRVKGVTGLRVADASVM 503
Query: 87 PYTVNANIHATCVMIGEKCADLIKQ 111
P V N + T +MIGE+CADLI+
Sbjct: 504 PEHVTVNPNITVMMIGERCADLIRS 528
>3t37_A Probable dehydrogenase; BET alpha beta fold, ADP binding,
oxidoreductase; HET: FAD; 2.19A {Mesorhizobium loti}
Length = 526
Score = 107 bits (270), Expect = 9e-29
Identities = 24/80 (30%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 32 DSDDYWKCTIKRRSSSYYHLSSTARMGDNILTSVVNYKLQVHGLENVRIADASVMPYTVN 91
+S I R +++H T RMG + +VV+ L++ L+N+ + DAS+MP
Sbjct: 444 NSAAEMDDFIARSVITHHHPCGTCRMGKDPD-AVVDANLRLKALDNLFVVDASIMPNLTA 502
Query: 92 ANIHATCVMIGEKCADLIKQ 111
IHA + I E A
Sbjct: 503 GPIHAAVLAIAETFARQYHH 522
>1kdg_A CDH, cellobiose dehydrogenase; GMC oxidoreductase, PHBH fold,
alpha/beta structure, rossman 6-hydroxylated FAD,
oxidoreductase; HET: NAG MAN 6FA EMT; 1.50A
{Phanerochaete chrysosporium} SCOP: c.3.1.2 d.16.1.1
PDB: 1naa_A*
Length = 546
Score = 105 bits (265), Expect = 4e-28
Identities = 17/80 (21%), Positives = 36/80 (45%)
Query: 31 YDSDDYWKCTIKRRSSSYYHLSSTARMGDNILTSVVNYKLQVHGLENVRIADASVMPYTV 90
+ + + + + H S+ +G + ++VV+ ++V G N+ I DA ++P+
Sbjct: 461 TQTLEEYVDAYDPATMNSNHWVSSTTIGSSPQSAVVDSNVKVFGTNNLFIVDAGIIPHLP 520
Query: 91 NANIHATCVMIGEKCADLIK 110
N T + E+ A I
Sbjct: 521 TGNPQGTLMSAAEQAAAKIL 540
>1n4w_A CHOD, cholesterol oxidase; flavoenzyme, steroid metabolism,
oxidoreductase, atomic RESO; HET: FAD; 0.92A
{Streptomyces SP} SCOP: c.3.1.2 d.16.1.1 PDB: 1b4v_A*
1n1p_A* 1n4u_A* 1n4v_A* 1mxt_A* 2gew_A* 1b8s_A* 3gyi_A*
1cc2_A* 3gyj_A* 1ijh_A* 1cbo_A* 3b3r_A* 3b6d_A* 3cnj_A*
Length = 504
Score = 69.3 bits (169), Expect = 3e-15
Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 5/61 (8%)
Query: 49 YHLSSTARMGDNILTSVVNYKLQVHGLENVRIADASVMPYTVNANIHATCVMIGEKCADL 108
YH +G + +V G +N+ + D S++P +V N T + E+ +
Sbjct: 441 YHPLGGCVLG-----KATDDYGRVAGYKNLYVTDGSLIPGSVGVNPFVTITALAERNVER 495
Query: 109 I 109
I
Sbjct: 496 I 496
>3pl8_A Pyranose 2-oxidase; substrate complex, H167A mutant, homotetramer,
GMC oxidoredu PHBH fold, rossmann domain,
oxidoreductase; HET: FAD MES G3F; 1.35A {Trametes
ochracea} PDB: 2igo_A* 3lsm_A* 2ign_A* 3k4c_A* 1tt0_A*
2igk_A* 3k4b_A* 3lsk_A* 3bg6_A* 3lsh_A* 3lsi_A* 2igm_A*
3k4j_A* 3k4m_A* 3bg7_A* 3k4k_A* 3k4l_A* 3bly_A* 1tzl_A*
3fdy_A* ...
Length = 623
Score = 68.3 bits (166), Expect = 7e-15
Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 2/71 (2%)
Query: 48 YYHLSSTARMGDN--ILTSVVNYKLQVHGLENVRIADASVMPYTVNANIHATCVMIGEKC 105
HL T RMG + VN +V G +N+ + +P AN T + + K
Sbjct: 546 VLHLGGTHRMGFDEKEDNCCVNTDSRVFGFKNLFLGGCGNIPTAYGANPTLTAMSLAIKS 605
Query: 106 ADLIKQYWEKS 116
+ IKQ + S
Sbjct: 606 CEYIKQNFTPS 616
>1coy_A Cholesterol oxidase; oxidoreductase(oxygen receptor); HET: AND FAD;
1.80A {Brevibacterium sterolicum} SCOP: c.3.1.2 d.16.1.1
PDB: 3cox_A*
Length = 507
Score = 60.6 bits (146), Expect = 4e-12
Identities = 11/62 (17%), Positives = 21/62 (33%), Gaps = 5/62 (8%)
Query: 48 YYHLSSTARMGDNILTSVVNYKLQVHGLENVRIADASVMPYTVNANIHATCVMIGEKCAD 107
YH + + ++ + + D S++P V N T + E+ D
Sbjct: 445 TYHPLGGVLLN-----KATDNFGRLPEYPGLYVVDGSLVPGNVGVNPFVTITALAERNMD 499
Query: 108 LI 109
I
Sbjct: 500 KI 501
>1u7n_A Fatty acid/phospholipid synthesis protein PLSX; structural
genomics, enterococcus faecalis V583, PSI, protein
structure initiative; HET: MSE; 2.26A {Enterococcus
faecalis} SCOP: c.77.1.4
Length = 336
Score = 26.0 bits (58), Expect = 3.6
Identities = 5/9 (55%), Positives = 6/9 (66%)
Query: 21 VDAIVCDGF 29
D +V DGF
Sbjct: 222 ADVVVTDGF 230
>1l6j_A Matrix metalloproteinase-9; twisted beta sheet flanked by helices,
hydrolase; 2.50A {Homo sapiens} SCOP: a.20.1.2 d.92.1.11
g.14.1.2 g.14.1.2 g.14.1.2
Length = 425
Score = 26.0 bits (56), Expect = 3.7
Identities = 15/70 (21%), Positives = 25/70 (35%)
Query: 29 FHYDSDDYWKCTIKRRSSSYYHLSSTARMGDNILTSVVNYKLQVHGLENVRIADASVMPY 88
F + Y CT RS Y ++TA + L + + + V P+
Sbjct: 273 FIFQGQSYSACTTDGRSDGYRWCATTANYDRDKLFGFCPTRADSTVMGGNSAGELCVFPF 332
Query: 89 TVNANIHATC 98
T ++TC
Sbjct: 333 TFLGKEYSTC 342
>1vi1_A Fatty acid/phospholipid synthesis protein PLSX; structural
genomics, unknown function; HET: MSE; 2.95A {Bacillus
subtilis} SCOP: c.77.1.4
Length = 345
Score = 26.0 bits (58), Expect = 3.8
Identities = 5/9 (55%), Positives = 6/9 (66%)
Query: 21 VDAIVCDGF 29
D +V DGF
Sbjct: 220 ADVVVTDGF 228
>1gq2_A Malic enzyme; oxidoreductase, pigeon liver, NADP-dependent,
NAD-NADP selectivity, decarboxylase, malate, Mn2+; HET:
NAP; 2.5A {Columba livia} SCOP: c.2.1.7 c.58.1.3 PDB:
2aw5_A
Length = 555
Score = 24.6 bits (54), Expect = 8.9
Identities = 9/28 (32%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 2 NDLNTMEMTLNFLNWPKTMVDAIVC-DG 28
+D + L +WP++++ AIV DG
Sbjct: 116 HDRGHIATMLQ--SWPESVIKAIVVTDG 141
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.132 0.414
Gapped
Lambda K H
0.267 0.0845 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,772,860
Number of extensions: 86501
Number of successful extensions: 202
Number of sequences better than 10.0: 1
Number of HSP's gapped: 195
Number of HSP's successfully gapped: 24
Length of query: 117
Length of database: 6,701,793
Length adjustment: 80
Effective length of query: 37
Effective length of database: 4,468,113
Effective search space: 165320181
Effective search space used: 165320181
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.2 bits)